Formalizing and benchmarking open problems in single-cell genomics
☆428May 7, 2026Updated last week
Alternatives and similar repositories for openproblems
Users that are interested in openproblems are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Formalizing and benchmarking open problems in single-cell genomics☆56Jun 11, 2025Updated 11 months ago
- Benchmarking analysis of data integration tools☆415Apr 27, 2026Updated 3 weeks ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,623Updated this week
- muon is a multimodal omics Python framework☆267May 8, 2026Updated last week
- Reference mapping for single-cell genomics☆404Mar 21, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- data and model repository for single-cell data☆136Dec 21, 2023Updated 2 years ago
- Spatial Single Cell Analysis in Python☆568May 12, 2026Updated last week
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆247Mar 14, 2026Updated 2 months ago
- CellRank: dynamics from multi-view single-cell data☆446May 4, 2026Updated 2 weeks ago
- Single-cell analysis in Python. Scales to >100M cells.☆2,452Updated this week
- A Bayesian model for compositional single-cell data analysis☆196Jan 13, 2026Updated 4 months ago
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,735May 2, 2026Updated 2 weeks ago
- https://www.sc-best-practices.org☆1,194May 13, 2026Updated last week
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,566Dec 11, 2022Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Quantifying experimental perturbations at single cell resolution☆114Sep 27, 2024Updated last year
- rapids-singlecell: GPU-accelerated framework for scRNA analysis☆370Updated this week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆495Apr 23, 2026Updated 3 weeks ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆122Jan 22, 2024Updated 2 years ago
- Models and datasets for perturbational single-cell omics☆178Aug 19, 2022Updated 3 years ago
- Cookiecutter template for scverse☆89Updated this week
- LIANA+: an all-in-one framework for cell-cell communication☆286Jan 24, 2026Updated 3 months ago
- Annotated data.☆741Updated this week
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 3 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- ☆32Jan 7, 2026Updated 4 months ago
- RNA Velocity generalized through dynamical modeling☆499Feb 25, 2026Updated 2 months ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆434Updated this week
- Build contrasts for models defined with formulaic☆12Updated this week
- marker-based purification of cell types from single-cell RNA-seq datasets☆141Mar 13, 2026Updated 2 months ago
- Multi-omics studies are available here☆53Jul 3, 2022Updated 3 years ago
- Single-cell epigenomics analysis tools☆319Mar 13, 2026Updated 2 months ago
- Learning cell communication from spatial graphs of cells☆118Jan 15, 2024Updated 2 years ago
- Table of software for the analysis of single-cell RNA-seq data.☆339Updated this week
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Distributed single-cell data analysis.☆39Updated this week
- Topics In Data Science and Bioinformatics☆79Feb 15, 2024Updated 2 years ago
- Graph-linked unified embedding for single-cell multi-omics data integration☆466Feb 9, 2026Updated 3 months ago
- Single-cell perturbation analysis☆314Updated this week
- List of software packages for multi-omics analysis☆927Apr 17, 2026Updated last month
- Visualising data frames as funky heatmaps 📊☆198Dec 12, 2025Updated 5 months ago
- Spatiotemporal modeling of spatial transcriptomics☆337Feb 25, 2026Updated 2 months ago